+データを開く
-基本情報
登録情報 | データベース: PDB / ID: 1emu | ||||||
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タイトル | STRUCTURE OF THE AXIN RGS-HOMOLOGOUS DOMAIN IN COMPLEX WITH A SAMP REPEAT FROM APC | ||||||
要素 |
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キーワード | SIGNALING PROTEIN / RGS domain | ||||||
機能・相同性 | 機能・相同性情報 APC truncation mutants are not K63 polyubiquitinated / armadillo repeat domain binding / regulation of microtubule-based movement / head development / negative regulation of cell cycle G1/S phase transition / 細胞生物学 / dorsal/ventral axis specification / axial mesoderm formation / gamma-catenin binding / regulation of attachment of spindle microtubules to kinetochore ...APC truncation mutants are not K63 polyubiquitinated / armadillo repeat domain binding / regulation of microtubule-based movement / head development / negative regulation of cell cycle G1/S phase transition / 細胞生物学 / dorsal/ventral axis specification / axial mesoderm formation / gamma-catenin binding / regulation of attachment of spindle microtubules to kinetochore / positive regulation of pseudopodium assembly / positive regulation of protein localization to centrosome / pattern specification process / bicellular tight junction assembly / protein kinase regulator activity / post-anal tail morphogenesis / negative regulation of microtubule depolymerization / negative regulation of cyclin-dependent protein serine/threonine kinase activity / APC truncation mutants have impaired AXIN binding / AXIN missense mutants destabilize the destruction complex / Truncations of AMER1 destabilize the destruction complex / microtubule plus-end binding / epigenetic programming in the zygotic pronuclei / beta-catenin destruction complex / positive regulation of ubiquitin-dependent protein catabolic process / regulation of microtubule-based process / heart valve development / Beta-catenin phosphorylation cascade / Signaling by GSK3beta mutants / CTNNB1 S33 mutants aren't phosphorylated / CTNNB1 S37 mutants aren't phosphorylated / CTNNB1 S45 mutants aren't phosphorylated / CTNNB1 T41 mutants aren't phosphorylated / catenin complex / I-SMAD binding / negative regulation of protein metabolic process / Wnt signalosome / Disassembly of the destruction complex and recruitment of AXIN to the membrane / cell fate specification / nucleocytoplasmic transport / endocardial cushion morphogenesis / negative regulation of fat cell differentiation / dynein complex binding / negative regulation of G1/S transition of mitotic cell cycle / RUNX1 regulates transcription of genes involved in WNT signaling / RUNX1 regulates estrogen receptor mediated transcription / mitotic spindle assembly checkpoint signaling / Apoptotic cleavage of cellular proteins / regulation of cell differentiation / negative regulation of transcription elongation by RNA polymerase II / positive regulation of transforming growth factor beta receptor signaling pathway / SMAD binding / activation of protein kinase activity / R-SMAD binding / mitotic cytokinesis / ubiquitin-like ligase-substrate adaptor activity / bicellular tight junction / canonical Wnt signaling pathway / lateral plasma membrane / signaling adaptor activity / cytoplasmic microtubule organization / positive regulation of peptidyl-threonine phosphorylation / positive regulation of protein ubiquitination / TCF dependent signaling in response to WNT / cell periphery / Deactivation of the beta-catenin transactivating complex / Degradation of AXIN / sensory perception of sound / 接着結合 / positive regulation of JNK cascade / negative regulation of canonical Wnt signaling pathway / Degradation of beta-catenin by the destruction complex / 動原体 / ruffle membrane / beta-catenin binding / Wntシグナル経路 / protein polyubiquitination / positive regulation of protein catabolic process / : / microtubule cytoskeleton / 遊走 / Ovarian tumor domain proteases / positive regulation of proteasomal ubiquitin-dependent protein catabolic process / p53 binding / lamellipodium / insulin receptor signaling pathway / positive regulation of peptidyl-serine phosphorylation / nervous system development / positive regulation of cold-induced thermogenesis / 細胞皮質 / cytoplasmic vesicle / microtubule binding / proteasome-mediated ubiquitin-dependent protein catabolic process / protein-containing complex assembly / Estrogen-dependent gene expression / in utero embryonic development / 微小管 / molecular adaptor activity / Ub-specific processing proteases / 細胞接着 類似検索 - 分子機能 | ||||||
生物種 | Homo sapiens (ヒト) | ||||||
手法 | X線回折 / シンクロトロン / 解像度: 1.9 Å | ||||||
データ登録者 | Spink, K.E. / Polakis, P. / Weis, W.I. | ||||||
引用 | ジャーナル: EMBO J. / 年: 2000 タイトル: Structural basis of the Axin-adenomatous polyposis coli interaction. 著者: Spink, K.E. / Polakis, P. / Weis, W.I. | ||||||
履歴 |
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-構造の表示
構造ビューア | 分子: MolmilJmol/JSmol |
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-ダウンロードとリンク
-ダウンロード
PDBx/mmCIF形式 | 1emu.cif.gz | 44.9 KB | 表示 | PDBx/mmCIF形式 |
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PDB形式 | pdb1emu.ent.gz | 32.1 KB | 表示 | PDB形式 |
PDBx/mmJSON形式 | 1emu.json.gz | ツリー表示 | PDBx/mmJSON形式 | |
その他 | その他のダウンロード |
-検証レポート
アーカイブディレクトリ | https://data.pdbj.org/pub/pdb/validation_reports/em/1emu ftp://data.pdbj.org/pub/pdb/validation_reports/em/1emu | HTTPS FTP |
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-関連構造データ
-リンク
-集合体
登録構造単位 |
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1 |
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単位格子 |
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-要素
#1: タンパク質 | 分子量: 15349.550 Da / 分子数: 1 / 断片: RGS-HOMOLOGOUS DOMAIN / 由来タイプ: 組換発現 / 由来: (組換発現) Homo sapiens (ヒト) / プラスミド: PGEX-2T / 発現宿主: Bacteria (細菌) / 参照: UniProt: O15169 | ||
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#2: タンパク質・ペプチド | 分子量: 1766.965 Da / 分子数: 1 / 断片: THIRD SAMP REPEAT / 由来タイプ: 合成 詳細: THIS PEPTIDE WAS CHEMICALLY SYNTHESIZED BY FMOC METHOD. THE SEQUENCE OF THIS PEPTIDE NATURALLY OCCURS IN HUMANS (HOMO SAPIENS) 参照: UniProt: P25054 | ||
#3: 化合物 | ChemComp-GOL / #4: 水 | ChemComp-HOH / | |
-実験情報
-実験
実験 | 手法: X線回折 / 使用した結晶の数: 2 |
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-試料調製
結晶 | マシュー密度: 2.25 Å3/Da / 溶媒含有率: 45.33 % | |||||||||||||||||||||||||||||||||||
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結晶化 | 温度: 293 K / 手法: 蒸気拡散法, ハンギングドロップ法 / pH: 5.5 詳細: MES, PEG 400, glycerol, DTT, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K | |||||||||||||||||||||||||||||||||||
結晶化 | *PLUS 温度: 4 ℃ | |||||||||||||||||||||||||||||||||||
溶液の組成 | *PLUS
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-データ収集
回折 |
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放射光源 |
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検出器 |
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放射 | プロトコル: SINGLE WAVELENGTH / 単色(M)・ラウエ(L): M / 散乱光タイプ: x-ray | |||||||||||||||
放射波長 |
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反射 | 解像度: 1.9→32 Å / Num. obs: 12617 / % possible obs: 99.3 % / Observed criterion σ(I): 0 / 冗長度: 3.2 % / Biso Wilson estimate: 14.9 Å2 / Rmerge(I) obs: 0.05 / Net I/σ(I): 19.3 | |||||||||||||||
反射 シェル | 解像度: 1.9→1.93 Å / 冗長度: 3 % / Rmerge(I) obs: 0.295 / Num. unique all: 611 / % possible all: 99.7 | |||||||||||||||
反射 シェル | *PLUS % possible obs: 99.7 % |
-解析
ソフトウェア |
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精密化 | 解像度: 1.9→32 Å / Rfactor Rfree error: 0.006 / Data cutoff high absF: 11160027.33 / Data cutoff low absF: 0 / Isotropic thermal model: RESTRAINED / 交差検証法: THROUGHOUT / σ(F): 0 / 立体化学のターゲット値: Engh & Huber
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溶媒の処理 | 溶媒モデル: FLAT MODEL / Bsol: 53.02 Å2 / ksol: 0.389 e/Å3 | ||||||||||||||||||||||||||||||||||||
原子変位パラメータ | Biso mean: 27.4 Å2
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Refine analyze |
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精密化ステップ | サイクル: LAST / 解像度: 1.9→32 Å
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拘束条件 |
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LS精密化 シェル | 解像度: 1.9→2.02 Å / Rfactor Rfree error: 0.019 / Total num. of bins used: 6
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Xplor file |
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ソフトウェア | *PLUS 名称: CNS / バージョン: 0.5 / 分類: refinement | ||||||||||||||||||||||||||||||||||||
拘束条件 | *PLUS
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